#ifndef __FINDMISMATCH_H__
#define __FINDMISMATCH_H__
#include "../CompressAlign/cpp/mian_util.h"
#include <ctype.h>
struct Info
{
	unsigned char* numMisMatch;
	unsigned char* misPos1;
	unsigned char* misPos2;
	unsigned char* misBase1;
	unsigned char* misBase2;
	unsigned int numSA;
	unsigned int readStringLength;
	unsigned int refStringLength;
        unsigned int readLength;

};

void findMisMatch(char*, char*, unsigned int*, unsigned int*,unsigned int*, struct Info*);

#endif
